Dynamics of a bubble formed in double stranded DNA
Soft Condensed Matter
2011-06-28 v1 Statistical Mechanics
Abstract
We study the fluctuational dynamics of a tagged base-pair in double stranded DNA. We calculate the drift force which acts on the tagged base-pair using a potential model that describes interactions at base pairs level and use it to construct a Fokker-Planck equation.The calculated displacement autocorrelation function is found to be in very good agreement with the experimental result of Altan-Bonnet {\it et. al.} Phys. Rev. Lett. {\bf 90}, 138101 (2003) over the entire time range of measurement. We calculate the most probable displacements which predominately contribute to the autocorrelation function and the half-time history of these displacements.
Keywords
Cite
@article{arxiv.0809.4602,
title = {Dynamics of a bubble formed in double stranded DNA},
author = {Shikha Srivastava and Yashwant Singh},
journal= {arXiv preprint arXiv:0809.4602},
year = {2011}
}
Comments
11 pages, 4 figures. submitted to Phys. Rev. Lett